1. Kovat’s retention Index
The retention index, I, was first proposed by Kovats in 1958 as a parameter for identifying solutes from chromatograms. The retention index for any given solute can be derived from a chromatogram of a mixture of that solute with at least two normal alkanes (chain length >four carbons) having retention times that bracket that of the solute.

2. That is, normal alkanes are the standards upon which the retention index scale is based. By definition, the retention index for a normal alkane is equal to 100 times the number of carbons in the compound regardless of the column packing, the temperature, or other chromatographic conditions. The retention index system has the advantage of being based upon readily available reference materials that cover a wide boiling range. The retention index of a compound is constant for a certain stationary phase but can be totally different for other stationary phases.

3. In finding the retention index, a plot of the number of carbons of standard alkanes against the logarithm of the adjusted retention time is first constructed. The value of the logarithm of the adjusted retention time of the unknown is then calculated and the retention index is obtained from the plot. The adjusted retention time, tR’, is defined as:
tR’ = tR - tM

4. Kovat’s retention Index Plot
Log tR’
Number of Paraffinic Carbons 4 5 6 7 8

5. GC/MS

7. HIGH PERFORMANCE LIQUID CHROMATOGRAPHY

8. Distance Across the Column

9. Pumps

10. Injectors

11. Columns

12. Detectors
UV-Vis Po P
From Column
To Waste

13. Refractive Index
Source
Detector
Sample
Reference
Mirror

14. Terms Bonded phase chromatography Types pf stationary phases
Reverse phase LC
Normal phase LC
Ion Chromatography
Ion-pairing chromatography
Size exclusion (gel permeation) chromatography
Efficiency
Selectivity
Mobile phase strength

15. LC/MS

16. Thin layer chromatography
Ismailov and Schraiber introduced the first report on thin layer chromatography (TLC) in After this report, extensive work was conducted were revolutionary expansion of the technique started in the early 1950's. TLC theory can be viewed as a special case of LSC in which a flat sheet of adsorbent is used instead of the column. Stationary phase is usually an active adsorbent with very high surface area. This material is fixed to a glass plate or other flat support

17. The mobile phase is a liquid or a mixture of liquids that can dissolve the sample in order to effect separation. In some cases a mobile phase is modified by addition of some salts in order to achieve better separations. The TLC plate is placed in a special tank called "developing tank" which contains the mobile phase. The sample is spotted just above the level of the mobile phase so that it can be carried up by the solvent.

18. Adsorption of solutes on the active solid stationary phase and its affinity to remain in the solvent are the two major factors leading to selectivity in TLC separations. This is sometimes referred to as sorption desorption mechanism.

19. TLC tank

21. Qualitative Analysis
TLC methods utilize a calculated factor as the basis for qualitative analysis. This is called the retardation factor (Rf) which has a specific value for a specific solute using specific mobile and stationary phases. Rf is defined as
Distance traveled by spot
Rf = _____________________________
Distance traveled by solvent front
Where, distance is measured from the center of the spot.
Solutes that are strongly adsorbed to the solid stationary phase exhibit smaller Rf values than others which are less strongly adsorbed.

22. Mass Spectrometry Sample Introduction Data Output Inlet Data System
Source
Mass
Analyzer
Ion
Detector
Vacuum
Pumps

23. Source – Ionization
Once we have produced gas phase molecules, we can start to look at the ionization process.
With some techniques, ionization occurs in conjunction with the vapourization step (we’ll discuss them later). If it does not, then we need to create the ions.
• Electron Impact ionization (EI)
• Chemical ionization (CI)
• Thermal ionization (TI)

24. Electron Impact Ionization
Neutral gas phase molecules drift into ionization region. Energetic electron beam ( eV) intersects molecules. Collisions create cations. Field extracts ions from ionizer and focuses and accelerates ( eV) ion beam towards mass analyzer.

25. Electron Impact Ionization Source + _ _ + e- e- e- _ ~70 Volts
Electron Collector (Trap)
Positive
Ions +
Repeller
Neutral
Molecules
Inlet _ _ + to
Analyzer + + + + + +
EI source e- e- e- _
Electrons
Filament
Extraction
Plate

26. EI Fragmentation
It only takes about 5 to 15 eV of energy to ionize the molecule. The rest of the electron energy is available to induce molecular bond rupture.
Fragmentation with EI is extensive.
This is useful since by studying the fragmentation pattern, one can discern the likely structural components of the original molecule and develop a model for its structure.
Fragmentation with EI is so extensive, however, that the parent ion – the ion arising from the original molecule – is often not detectable. EI really “blows apart” the target molecules.

27. Chemical Ionization
Chemical Ionization (CI) is a means of “softening” the fragmentation effect of EI. A buffer gas, often methane CH4, is added in a large excess (~x100 fold) over the analyte. The electron beam ionizes the methane, gas phase reactions produce molecular ions such as CH5+ which collide with analyte molecules (M) to gently produce the analyte ions (MH+).
Can perform CI in same unit with EI except for much higher pressure.
Must provide additional pumping speed to move extra buffer gas out of ionizer so as to not degrade vacuum in analyzer.
Ionization process much gentler and it tends to produce ions with an extra proton mass.

28. Electrospray Ionization
The most gentle ionization technique. Produces multiply charged ions. Based ion Ion Evapouration process.
Rubinson 544

30. Mass Analyzers
At the heart of a mass spectrometer is the mass analysis system. The selection is always based upon a mass-to-charge ratio, rather than on absolute mass. In many techniques, it is common to produce multiply charged species so that they show up at a much lower m/z value. The principal devices for mass selection are
• quadrupole
• magnetic sector
• double focusing (sector)
• ion trap
• ion cyclotron
• time-of-flight

31. Mass Resolution
A principal measure of the performance of a mass spec is its resolution. It is usually given as
A spectrometer with a resolution of 2500 is needed to be able to distinguish between carbon monoxide (CO) and nitrogen (N2). Both are nominally with a mass of 28 amu, but a more precise calculation has m(CO) = amu and m(N2) = amu.
A resolution of 50 is all that is needed to distinguish ammonia (NH3) from methane (CH4) whose nominal masses differ by about 1 amu (17 amu vs. 16 amu).
Commercial units with resolution from 500 to 500,000 are available.

32. Quadrupole
Perhaps the most common mass spectrometer. Not the highest resolution. Opposite rods are polarized in phase with each other and out of phase with the other two rods.
DC voltage drives ions to negative rods
RF signal reverses sign in time to push ions away.
Only specific m/z has right velocity to match with RF signal.
Scan masses by scanning RF and DC but keep ratio constant.

33. Quadrupole Ion Filter resonant ion non-resonant ion Detector _ + + _
Source
DC and AC
Voltages

34. Magnetic Sector
A charged particle (an ion) experiences a force that bends its path when moving through a magnetic field. The balance between magnetic force and centripetal force brings an ion of a particular m/z to the entrance slit of a detector.
Skoog p. 515

35. Magnetic Sector Mass Analyzer
ion trajectory
in register
ion trajectory
not in register
(too light) S
Detector
Ion
Source N
ion trajectory
not in register
(too heavy)
Electromagnet

36. Double Focusing
A single magnetic sector instrument’s resolution is limited by the spread of translational energy of the ions coming from the source. A double focusing instrument uses an electrostatic field to narrow the energy spread before the ions enter the magnetic sector. Resolutions of 105 are achievable with these instruments.
Skoog p. 517

37. Time-of-Flight
Ions accelerated to same energy. Masses differences mean different velocities. They travel a long path (1 - 2 m) and arrive at the detector at different times. Time of arrival calculates m/z. Newer instruments are Reflectrons, with ion mirror.
Rubinson p.562

40. Typical sample: isolated
A Typical Mass Spectrum O C H 3
Mass
Spectrometer H C C N 3 N C C H C C O N N H
Typical sample: isolated
compound (~1 nanogram)
Mass Spectrum
194 67
109
Abundance 55 82 42 94
136
165 40 60 80
100
120
140
160
180
200
Mass (amu)